Pathway-Based Kernel Boosting for the Analysis of Genome-Wide Association Studies

Table 3

Characteristics of analyzed GWAS datasets. Numbers of case and control individuals after quality control and SNP numbers for several analysis stages are displayed. Preprocessing of SNPs included quality control of genotype data, as well as updating genomic SNP positions according to the latest information (genomic build 38). The last column indicates the total number of all SNPs annotated to a pathway under investigation.

Study	Cases/controls	SNPs genotyped	SNPs after preprocessing	SNPs in analysis
Lung cancer	467/468	561,466	533,062	148,938
Rheumatoid arthritis	866/1189	545,080	491,695	137,839